CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2258
Accession number EF370315
Name 01HJY12_2429s
SubtypeB
CountrySouth Korea
Sampling year 2001
PatientHJY

EF370315 isolate has foldings of [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [USE region] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing USE region

The primary sequence:

actggggagt ggcgagccct cagatgctgc ataaaagcag ctgctttttg cctgtactgg gtctctctgg ttagaccaga tctgagcctg ggagctctct ggctgactag ggaacccact gcttaagcct caataaagct tgccttgagt gctttaagta gtgt

Isolates with identical sequences of region:

EF370292(#2255)

The optimal secondary structure:


The suboptimal structures within ΔΔG ≤ 4 kcal/mole of the minimum free energy